Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LAB08_RS26090 Genome accession   NZ_AP017423
Coordinates   5844895..5846595 (+) Length   566 a.a.
NCBI ID   WP_096515138.1    Uniprot ID   -
Organism   Pseudomonas izuensis strain LAB-08     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5839895..5851595
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LAB08_RS26070 (LAB08_R52170) - 5840085..5843036 (+) 2952 WP_096515146.1 DUF748 domain-containing protein -
  LAB08_RS26075 (LAB08_R52180) - 5843036..5843332 (+) 297 WP_096515144.1 DUF2845 domain-containing protein -
  LAB08_RS26080 (LAB08_R52190) - 5843600..5843953 (-) 354 WP_096515143.1 BON domain-containing protein -
  LAB08_RS26085 (LAB08_R52200) pilA 5844268..5844669 (-) 402 WP_096515140.1 pilin Machinery gene
  LAB08_RS26090 (LAB08_R52210) pilB 5844895..5846595 (+) 1701 WP_096515138.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LAB08_RS26095 (LAB08_R52220) pilC 5846598..5847815 (+) 1218 WP_096515135.1 type II secretion system F family protein Machinery gene
  LAB08_RS26100 (LAB08_R52230) pilD 5847817..5848689 (+) 873 WP_096515134.1 A24 family peptidase Machinery gene
  LAB08_RS26105 (LAB08_R52240) coaE 5848686..5849309 (+) 624 WP_096515132.1 dephospho-CoA kinase -
  LAB08_RS26110 (LAB08_R52250) yacG 5849306..5849506 (+) 201 WP_096515130.1 DNA gyrase inhibitor YacG -
  LAB08_RS26115 (LAB08_R52260) - 5849739..5850293 (+) 555 WP_096515128.1 hypothetical protein -
  LAB08_RS26120 (LAB08_R52270) - 5850350..5850667 (-) 318 WP_096515646.1 cytochrome C oxidase subunit IV family protein -
  LAB08_RS26125 (LAB08_R52280) - 5850681..5851394 (-) 714 WP_096515126.1 heme-copper oxidase subunit III family protein -

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 62857.96 Da        Isoelectric Point: 5.9438

>NTDB_id=67923 LAB08_RS26090 WP_096515138.1 5844895..5846595(+) (pilB) [Pseudomonas izuensis strain LAB-08]
MNDIALSGLAKQLVLAELLTDKSAQHASQQAQRNHVSLVSYLVQNKLVKSRQVAEIASEHFGMALMDLNSLDKETQPKGL
VSEKLVRQHHALPLWRRGNKLFVGISDPTSHQAINDIQFSTGLTTEAILVEDDKLSDAIERFFDSQGTGLEDMVDVDLDG
MDIEAADDRRQDAIIGQEADDAPVVRFVHKMLLDAIRSGSSDLHFEPYEKIYRVRMRTDGILREVAKPPIQLANRIAARL
KVMASLDISERRKPQDGRMKMRLSKNKSIDLRVNTLPTLWGEKVVIRILDPSSAQMGIDALGYEPEQQDLYMTALRQPQG
MILVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINMEGINQVNVNPKQGMDFAQALRSFLRQDPDVIMVGEIRDL
ETAEIAIKAAQTGHLVLSTLHTNSAAQTLTRLHNMGIQGFNIATSVSLIIAQRLARKLCSHCRVPLDVPRETLLKEGFPE
ERIGTFTIYEPVGCEHCNGGFKGRVGIYEVVKNTPDLQRLIMAEGNALQIDEQMRKDGFNDLRTSGLLKAMQGITSLEEI
NRVTKD

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=67923 LAB08_RS26090 WP_096515138.1 5844895..5846595(+) (pilB) [Pseudomonas izuensis strain LAB-08]
ATGAATGACATCGCCCTCAGCGGTCTGGCCAAGCAATTGGTCCTGGCCGAGCTGCTCACTGACAAAAGCGCGCAACACGC
TTCTCAACAAGCCCAACGCAACCACGTCTCACTGGTCAGCTACCTGGTGCAGAACAAACTGGTGAAAAGCCGTCAGGTTG
CCGAGATTGCTTCTGAACACTTCGGCATGGCCTTGATGGATCTCAACAGTCTGGACAAGGAAACCCAACCCAAGGGACTG
GTCAGCGAAAAACTGGTCCGCCAGCACCACGCCCTGCCCCTCTGGCGTCGTGGCAACAAACTGTTCGTGGGGATCTCCGA
CCCGACCAGTCACCAGGCCATCAACGACATTCAGTTCAGCACCGGGCTTACCACCGAAGCCATCCTGGTGGAGGACGACA
AGCTCAGTGACGCCATCGAGCGGTTCTTCGACAGCCAGGGCACTGGCCTTGAAGACATGGTCGACGTTGACCTCGACGGG
ATGGACATCGAAGCGGCCGATGACAGGCGCCAGGATGCCATCATCGGCCAGGAAGCCGATGATGCGCCGGTGGTGCGCTT
CGTCCACAAGATGCTGCTCGACGCGATCAGGAGCGGCTCTTCCGACCTGCATTTCGAGCCCTACGAGAAAATTTATCGGG
TGCGGATGCGCACCGACGGCATTTTGCGGGAAGTCGCCAAACCGCCGATCCAGTTGGCCAACCGCATCGCGGCGCGGCTG
AAGGTCATGGCCAGCCTCGACATCTCCGAGCGCCGCAAGCCCCAGGACGGGCGGATGAAGATGCGCCTGTCCAAAAACAA
ATCCATCGATTTGCGGGTCAACACCTTGCCGACCCTGTGGGGCGAGAAAGTGGTGATCCGGATTCTTGACCCCTCCAGCG
CACAAATGGGCATCGATGCCCTTGGCTACGAGCCCGAACAACAAGACCTGTACATGACCGCGCTCAGGCAACCACAGGGG
ATGATTCTGGTGACCGGCCCCACGGGCTCCGGCAAAACCGTGTCGCTTTATACCGGGCTGAACATTCTCAATACCGTGGA
CATCAACATCTCCACCGCCGAAGACCCGGTGGAGATCAATATGGAAGGCATCAACCAGGTCAACGTCAATCCTAAACAGG
GCATGGATTTCGCCCAGGCGCTACGCTCCTTTCTGCGCCAGGATCCGGACGTGATCATGGTCGGTGAGATCCGCGACCTC
GAAACCGCCGAAATCGCCATCAAGGCCGCCCAGACCGGGCATCTGGTGTTATCGACCCTGCACACCAACAGCGCCGCGCA
AACCCTGACCCGCCTGCACAACATGGGCATCCAGGGCTTCAACATCGCCACGTCGGTCAGCCTGATCATCGCCCAGCGCC
TGGCACGCAAACTGTGCAGCCATTGCCGGGTGCCCCTCGACGTTCCCCGCGAAACGCTGCTCAAGGAAGGCTTCCCCGAG
GAACGCATCGGCACATTCACGATCTATGAGCCGGTCGGCTGCGAACACTGCAACGGCGGCTTCAAGGGACGCGTGGGGAT
TTATGAAGTGGTGAAGAACACGCCGGACCTGCAACGCCTGATCATGGCCGAAGGCAATGCGCTGCAAATCGATGAGCAGA
TGCGCAAGGACGGCTTCAACGACCTGCGCACTTCAGGCCTGCTCAAAGCCATGCAAGGCATTACCAGCCTTGAAGAAATC
AACCGGGTTACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(42-147)

Type II/IV secretion system protein (T2SSE)

(190-457)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  pilB Acinetobacter baylyi ADP1

57.016

99.47

0.567
  pilB Acinetobacter baumannii D1279779

56.738

99.647

0.565
  pilB Legionella pneumophila strain ERS1305867

55.124

100

0.551
  pilB Vibrio cholerae strain A1552

50.53

100

0.505
  pilB Vibrio campbellii strain DS40M4

48.421

100

0.488
  pilF Neisseria gonorrhoeae MS11

48.845

99.47

0.486
  pilB Vibrio parahaemolyticus RIMD 2210633

49.273

97.173

0.479
  pilF Thermus thermophilus HB27

36.926

100

0.369
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.606

93.816

0.362

Multiple sequence alignment